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USGS2005

An assessment of optical properties of dissolved organic material as quantitative source indicators in the Santa Ana River basin, Southern California

The ability to rapidly, reliably, and inexpensively characterize sources of dissolved organic material (DOM) in watersheds would allow water management agencies to more quickly identify problems in water sources, and to more efficiently allocate water resources by, for example, permitting real-time identification of high-quality water suitable for ground-water recharge, or poor-quality water in need of mitigation. This study examined the feasibility of using easily measurable intrinsic optical properties' absorbance and fluorescence spectra, as quantitative indicators of DOM sources and, thus, a predictor of water quality. The study focused on the Santa Ana River Basin, in southern California, USA, which comprises an area of dense urban development and an area of intense dairy production. Base flow in the Santa Ana Basin is primarily tertiary treated wastewater discharge. Available hydrologic data indicate that urban and agricultural runoff degrades water quality during storm events by introducing pathogens, nutrients, and other contaminants, including significant amounts of DOM. These conditions provide the basis for evaluating the use of DOM optical properties as a tracer of DOM from different sources. Sample spectra representing four principal DOM sources were identified among all samples collected in 1999 on the basis of basin hydrology, and the distribution of spectral variability within all the sample data. A linear mixing model provided quantitative estimates of relative endmember contribution to sample spectra for monthly, storm, and diurnal samples. The spectral properties of the four sources (endmembers), Pristine Water, Wastewater, Urban Water, and Dairy Water, accounted for 94 percent of the variability in optical properties observed in the study, suggesting that all important DOM sources were represented. The scale and distribution of the residual spectra, that not explained by the endmembers, suggested that the endmember spectra selected did not adequately represent Urban Water base flow. However, model assignments of sources generally agreed well with those expected, based on sampling location and hydrology. The results suggest that with a fuller characterization of the endmember spectra, analysis of optical properties will provide rapid quantitative estimates of the relative contribution of DOM sources in the Santa Ana Basin.

Scientific Investigations Report↗
USGS2006

Assessment of the use of selected chemical and microbiological constituents as indicators of wastewater in curtain drains from home sewage-treatment systems in Medina County, Ohio

Many home sewage-treatment systems (HSTS) in Ohio use curtain or perimeter drains to depress the level of the subsurface water in and around the systems. These drains could possibly intercept partially untreated wastewater and release potential pathogens to ground-water and surface-water bodies. The quality of water in curtain drains from two different HSTS designs in Medina County, Ohio, was investigated using several methods. Six evaporation-transpiration-absorption (ETA) and five leach-line (LL) systems were investigated by determining nutrient concentrations, chloride/bromide ratios (Cl/Br), Escherichia coli (E. coli ) concentrations, coliphage genotyping, and genetic fingerprinting of E. coli. Water samples were collected at 11 sites and included samples from curtain drains, septic tanks, and residential water wells. Nitrate concentrations in the curtain drains ranged from 0.03 to 3.53 mg/L (milligrams per liter), as N. Concentrations of chloride in 10 of the 11 curtain drains ranged from 5.5 to 21 mg/L; the chloride concentration in the eleventh curtain drain was 340 mg/L. Bromide concentrations in 11 curtain drains ranged from 0.01 to 0.22 mg/L. Cl/Br ratios ranged from 86 to 2,000. F-specific coliphage were not found in any curtain-drain samples. Concentrations of E. coli in the curtain drains ranged from 1 to 760 colonies per 100 milliliters. The curtain-drain water-quality data were evaluated to determine whether HSTS-derived water was present in the curtain drains. Nutrient concentrations were too low to be of use in the determination. The Cl/Br ratios appear promising. Coliphage was not detected in the curtain drains, so genotyping could not be attempted. E. coli concentrations in the curtain drains were all less than those from the corresponding HSTS; only one sample exceeded the Ohio secondary-contact water-quality standard. The genetic fingerprinting data were inconclusive because multiple links between unrelated sites were found. Although the curtain-drain samples from the ETA systems showed somewhat more evidence of the presence of HSTS water than did the LL systems, most of the approaches were inconclusive by themselves. The best evidence of HSTS water, from the Cl/Br ratios, indicates that the water in 10 of the 11 curtain drains, at both HSTS types, was a mixture of dilute ground water and HSTS-derived water; the 11th drain also show some effects of the HSTS, although road salt-affected water may be present. Therefore, it appears that there is no difference between the ETA and LL systems with respect to the water quality in curtain drains.

Scientific Investigations Report↗
USGS2007

Water-quality characteristics for selected sites within the Milwaukee Metropolitan Sewerage District planning area, Wisconsin, February 2004-September 2005

The Milwaukee Metropolitan Sewerage District (MMSD) Corridor Study is a three-phase project designed to improve the understanding of water resources in the MMSD planning area to assist managers and policy makers in their decisions. Phase I of the Study involved the compilation of existing data from multiple agencies into a single database. These data were analyzed to identify spatial, temporal, and technological gaps in the planning area, and were used to develop Phase II of the Study. Phase II, the subject of this report, involved an intensive data-collection effort by the U.S. Geological Survey (USGS) in cooperation with MMSD (from February, 2004, through September, 2005). This phase addressed the data gaps identified in Phase I and completed a baseline assessment of water quality for selected stream and harbor sites in the MMSD planning area. This baseline assessment included evaluations of surface-water chemistry and microbial concentrations in the streams and harbor sites; additionally, stream sites were evaluated for discharge, sediment chemistry, fish-tissue chemistry, habitat, and the quality of biological communities (including fish, macroinvertebrates, and algae). In all, data were collected at 15 stream and 6 harbor sites within the MMSD planning area, including manual sampling and analysis for more than 220 water-quality properties and constituents at all 21 sites, stream-discharge data for 14 stream sites, and automated water-quality sampling at 4 stream sites. A bioassessment during autumn 2004 included collection of biologic-community data and stream-habitat data at wadeable streams. Quartiles of Phase II aggregate bioassessment rankings were used to divide the 14 wadeable stream sites into four groups to investigate relations between bioassessment data and site characteristic and water-quality data. Quartile numbers reflect relative water quality: quartile 1 contained sites where the bioassessment data indicated the least-degraded water quality among those sampled, and quartile 4 contained sites that indicated the most-degraded water quality. Quartiles contained the following stream sites: Quartile 1: Milwaukee River near Cedarburg, Milwaukee River at Milwaukee, Jewel Creek, and Menomonee River at Menomonee Falls; Quartile 2: Willow Creek, Root River near Franklin, and Root River at Grange Avenue; Quartile 3: Menomonee River at Wauwatosa, Oak Creek, and Little Menomonee River; and Quartile 4: Honey Creek, Underwood Creek, Lincoln Creek, and Kinnickinnic River. Site characteristics (in this case, drainage area and land use) and selected water-quality data were summarized based on the four bioassessment quartiles to determine if there were relations with the aggregate bioassessment rankings. In general, sites having the largest drainage basins with the lowest proportion of urban land use were in quartile 1, and the smallest drainage basins with the highest proportion of urban land use were in quartile 4. Major ions, indicator organisms, and wastewater compounds generally had the lowest overall results in quartile 1 and highest overall results in quartile 4, with intermediate results in quartiles 2 and 3. Results for other constituent types (nutrients, mercury, pathogenic organisms, and bed sediment) were mixed, with results for some constituents decreasing from quartile 1 to quartile 4. Where sufficient Phase I data were available, summary statistics (including medians) for chemical and biological data were calculated, allowing some comparisons to be made between Phase I and Phase II data. Comparisons between Phase I and Phase II results indicated a variety of changes with respect to water quality. Concentrations of chloride, nitrate, chlorophyll a, total phosphorus in water; arsenic in bed sediment; and fish Index of Biotic Integrity ratings generally indicated declines in water quality. However, concentrations of total nitrogen, suspended sediment, and fecal coliform in water; some trace eleme

Wisconsin↗
USGS2007

Summary of Optical-Backscatter and Suspended-Sediment Data, Tomales Bay Watershed, California, Water Years 2004, 2005, and 2006

The U.S. Geological Survey, in cooperation with Point Reyes National Seashore, is studying suspended-sediment transport dynamics in the two primary tributaries to Tomales Bay, Lagunitas Creek and Walker Creek. Suspended-sediment samples and continuous optical backscatter (turbidity) data were collected at three locations during water years 2004?06 (October 1, 2003?September 30, 2006): at two sites in the Lagunitas Creek watershed and at one site in the Walker Creek watershed. Sediment samples were analyzed for suspended-sediment concentration, grain size, and turbidity. Data were used to estimate mean daily and annual seasonal suspended-sediment discharge, which were published in U.S. Geological Survey Annual Water-Data Reports. Data were utilized further in this report to develop field-based optical-backscatter calibration equations, which then were used to derive a continuous time series (15-minute interval) of suspended-sediment concentrations. Sensor fouling and aggradation of the channel bed occurred periodically throughout the project period, resulting in data loss. Although periods of data loss occurred, collection of optical sensor data improved our understanding of suspended-sediment dynamics in the Lagunitas Creek and Walker Creek watersheds by providing continuous time-series storm event data that were analyzed to determine durations of elevated sediment concentrations (periods of time when suspended-sediment concentration was greater than 100 mg/L). Data derived from this project contributed baseline suspended-sediment transport information that will be used to develop and implement sediment total maximum daily loads for Tomales Bay and its tributary watersheds, and provides supporting information for additional total maximum daily loads (pathogens, nutrients, and mercury) and restoration efforts for four federally listed aquatic species that are affected directly by sediment loading in the Tomales Bay watershed. In addition, this project provided an opportunity to evaluate the suitability of using optical data as a surrogate for more traditional labor-intensive methods of measuring suspended-sediment transport in steep coastal watersheds.

Scientific Investigations Report↗
USGS2010

Analysis of the Shallow Groundwater Flow System at Fire Island National Seashore, Suffolk County, New York

Fire Island National Seashore (FIIS) occupies 42 kilometers of the barrier island for which it is named that lies off the southern shore of Suffolk County, N.Y. Freshwater in the highly permeable, sandy aquifer underlying Fire Island is bounded laterally by marine surface waters and at depth by saline groundwater. Interspersed throughout FIIS are 17 pre-existing residential communities that in summer months greatly increase in population through the arrival of summer residents and vacationers; in addition, the National Park Service (NPS) has established several facilities on the island to accommodate visitors to FIIS. The 2.2 million people estimated by the NPS to visit Fire Island annually impact groundwater quality through the release of waste-derived contaminants, such as nutrients, pathogens, and organic compounds, into the environment. Waste-contaminated groundwater can move through the aquifer and threaten the ecological health of the adjacent back-barrier estuaries to which much of the groundwater ultimately discharges. In 2004, the U.S. Geological Survey (USGS), in cooperation with the NPS, began a 3-year investigation to (1) collect groundwater levels and water-quality (nutrient) samples, (2) develop a three-dimensional model of the shallow (water-table) aquifer system and adjacent marine surface waters, and (3) calculate nitrogen loads in simulated groundwater discharges from the aquifer to back-barrier estuaries and the ocean. The hydrogeology of the shallow aquifer system was characterized from the results of exploratory drilling, geophysical surveying, water-level monitoring, and water-quality sampling. The investigation focused on four areas-the communities of Kismet and Robbins Rest, the NPS Visitor Center at Watch Hill, and the undeveloped Otis Pike Fire Island High Dune Wilderness. Thirty-five observation wells were installed within FIIS to characterize subsurface hydrogeology and establish a water-table monitoring network in the four study areas. A variable-density model of the shallow aquifer system and adjacent marine surface waters was developed to simulate groundwater flow patterns and rates. Nitrogen loads from the shallow aquifer system were calculated from representative total nitrogen (TN) concentrations and simulated groundwater discharges to back-barrier estuaries and the ocean. The model simulates groundwater directions, velocities, and discharge rates under 2005 mean annual conditions. Groundwater budgets were developed for recharge areas of similar land use that contribute freshwater to back-barrier estuaries, the ocean, and subsea-discharge zones. Total freshwater discharge from the shallow aquifer system is about 43,500 cubic meters per day (m3/d) (79.8 percent) to back-barrier estuaries and about 10,200 m3/d (18.7 percent) to the ocean; about 836 m3/d (1.5 percent) may exit the system as subsea underflow. The total contribution of fresh groundwater to shoreline discharge zones amounts to about 53,700 m3/d (98.5 percent). The median age of freshwater discharged to back-barrier estuaries and the ocean was 3.4 years, and the 95th-percentile age was 20 years. The TN concentrations and loads under 2005 mean annual conditions for areas that contribute fresh groundwater to back-barrier estuaries and the ocean were calculated for the principal land uses on Fire Island. The overall TN load from the shallow aquifer system to shoreline discharge zones is about 16,200 kilograms per year (kg/yr) (82.2 percent) to back-barrier estuaries and about 3,500 kg/yr (17.8 percent) to the ocean. The overall TN load to marine surface waters amounts to about 19,700 kg/yr-roughly 6 percent of the annual TN load from shallow groundwater entering the South Shore Estuary Reserve (SSER) from the Suffolk County mainland, which is about 345,000 kg/yr. In contrast to the TN load from shallow groundwater for the SSER watershed, which annually yields about 353 kilograms per square kilometer (kg/km2), the overall TN loa

Scientific Investigations Report↗
USGS2012

Groundwater quality in the Columbia Plateau, Snake River Plain, and Oahu basaltic-rock and basin-fill aquifers in the Northwestern United States and Hawaii, 1992-2010

This assessment of groundwater-quality conditions of the Columbia Plateau, Snake River Plain, and Oahu for the period 1992–2010 is part of the U.S. Geological Survey’s National Water Quality Assessment (NAWQA) program. It shows where, when, why, and how specific water-quality conditions occur in groundwater of the three study areas and yields science-based implications for assessing and managing the quality of these water resources. The primary aquifers in the Columbia Plateau, Snake River Plain, and Oahu are mostly composed of fractured basalt, which makes their hydrology and geochemistry similar. In spite of the hydrogeologic similarities, there are climatic differences that affect the agricultural practices overlying the aquifers, which in turn affect the groundwater quality. Understanding groundwater-quality conditions and the natural and human factors that control groundwater quality is important because of the implications to human health, the sustainability of rural agricultural economies, and the substantial costs associated with land and water management, conservation, and regulation. The principal regional aquifers of the Columbia Plateau, Snake River Plain, and Oahu are highly vulnerable to contamination by chemicals applied at the land surface; essentially, they are as vulnerable as many shallow surficial aquifers elsewhere. The permeable and largely unconfined character of principal aquifers in the Columbia Plateau, Snake River Plain, and Oahu allow water and chemicals to infiltrate to the water table despite depths to water commonly in the hundreds of feet. The aquifers are essentially unconfined over large areas, having few extensive clay layers to impede infiltration through permeable volcanic rock and alluvial sediments. Agriculture is intensive in all three study areas, and heavy irrigation has imposed large artificial flows of irrigation recharge that rival or exceed natural recharge rates. Fertilizers and pesticides applied at land surface are leached from soil and transported to deep water tables with the infiltrating irrigation recharge, resulting in a layer of degraded water quality overlying better quality regional groundwater beneath. This “irrigation-recharge layer” is best known on Oahu, where it has been studied since the 1960s; however, the extent of nitrate and pesticide contamination in the Columbia Plateau and Snake River Plain indicate that the same situation exists in those areas. Contamination from agricultural and urban activities is present not only at shallow depths in surficial materials of the three areas, but extends regionally in the deep, principal bedrock aquifers that are tapped for drinking water by domestic and public-supply wells. Naturally occurring constituents and nitrate concentrations above human-health benchmarks—Maximum Contaminant Levels (MCLs), and Health-Based Screening Levels (HBSLs)—were more common in the Columbia Plateau and the Snake River Plain than in Oahu. Concentrations of anthropogenic constituents (constituents related to human activities) above human-health benchmarks were more common in Oahu. Naturally occurring contaminants, such as arsenic and radon, may be present in groundwater at concentrations of potential concern for human health in relatively undeveloped settings that otherwise may not be perceived as susceptible to contamination. Even though the median depth to groundwater in Oahu is more than 300 feet, the common occurrence of anthropogenic compounds in groundwater indicates that Oahu has a high susceptibility to contamination. Nitrate concentrations in groundwater were above the national background concentrations of 1 milligram per liter (mg/L) in all three study areas. In the Columbia Plateau, nitrate exceeded the human-health benchmark of 10 mg/L in 20 percent of the wells sampled. In the Snake River Plain, nitrate exceeded the human-health benchmark of 10 mg/L in 3 percent of the wells sampled. Nitrate can persist in groundwater for years and even decades in the oxygen-rich groundwater of the Columbia Plateau and the Snake River Plain, so prudent groundwater protection measures are critical to protect drinking water resources by reducing nitrate leaching from the land surface. Nitrate logistic regression models indicated that areas with a high percentage of land in crops (such as potatoes or sugarcane) and soils with low amounts of organic matter are most likely to have elevated nitrate concentrations in the groundwater. Areas where agricultural activities were absent had much lower probabilities of detecting elevated nitrate concentrations. The Columbia Plateau had a much higher probability of having elevated nitrate concentrations, with most of the land area having greater than a 50 percent probability of elevated nitrate concentrations. Oahu and the Snake River Plain had a much lower probability of having elevated nitrate concentrations because of their lower percentage of agricultural land. Pesticides were detected at many sites in groundwater of the Columbia Plateau, Snake River Plain, and Oahu but generally at low concentrations below human-health benchmarks. Atrazine and its degradate (a compound produced from the breakdown of a parent pesticide), deethylatrazine, were the most commonly detected pesticides in groundwater sampled in the Columbia Plateau and Snake River Plain. Bromacil was the most commonly detected pesticide on Oahu. The other pesticides most commonly detected in the study areas include simazine, hexazinone, metribuzin, diuron, prometon, metolachlor, p,p’ -DDE, dieldrin, 2-4-D, and alachlor. DDE (a degradate of DDT) and dieldrin are still being detected in groundwater despite having been banned for more than 30 years. Codetection of multiple pesticides in water from a single well was common. The widespread occurrence of pesticides in groundwater in the study areas indicates that the groundwater is highly susceptible to pesticide contamination. Some pesticides were detected in groundwater samples from all three study areas, but other pesticides were detected only in samples from Oahu, or only in samples from the Columbia Plateau and Snake River Plain. This is because some pesticides (such as atrazine) are broad-spectrum pesticides that are used on many crops in many different areas of the United States. Other pesticides (such as simazine, metribuzin, and metolachlor) are used on row crops (such as potatoes, barley, and alfalfa) grown in the Columbia Plateau and Snake River Plain, but not on pineapple or sugarcane grown in Oahu. Atrazine logistic-regression models indicate that areas with a high percentage of land in crops (such as potatoes or sugarcane), a low percentage of fallow land, and highly permeable soils with low amounts of organic matter are most likely to have atrazine detected in the groundwater. Areas where agricultural activities were absent had much lower probabilities of atrazine being detected. The Snake River Plain had a much higher probability of atrazine detections, with more than 50 percent of the land area having greater than a 50 percent probability of atrazine contamination. Oahu had a much lower probability of atrazine contamination, with only 24 percent of the land area having greater than a 50 percent probability of atrazine contamination. Oahu and the Columbia Plateau had some of the highest percentages of soil fumigant detections in groundwater in the United States. Soil fumigants are volatile organic compounds (VOCs) used as pesticides, which are applied to soils to reduce populations of plant parasitic nematodes (harmful rootworms), weeds, fungal pathogens, and other soil-borne microorganisms. They are used in Oahu and the Columbia Plateau on crops such as pineapple and potatoes. All three areas (Columbia Plateau, Snake River Plain, and Oahu) had fumigant concentrations exceeding human-health benchmarks for drinking water.

Hawai'i, Idaho, Nevada, Oregon, Utah, Washington, ↗
USGS2013

Evaluation of potential sources and transport mechanisms of fecal indicator bacteria to beach water, Murphy Park Beach, Door County, Wisconsin

Fecal Indicator Bacteria (FIB) concentrations in beach water have been used for many years as a criterion for closing beaches due to potential health concerns. Yet, current understanding of sources and transport mechanisms that drive FIB occurrence remains insufficient for accurate prediction of closures at many beaches. Murphy Park Beach, a relatively pristine beach on Green Bay in Door County, Wis., was selected for a study to evaluate FIB sources and transport mechanisms. Although the relatively pristine nature of the beach yielded no detection of pathogenic bacterial genes and relatively low FIB concentrations during the study period compared with other Great Lakes Beaches, its selection limited the number of confounding FIB sources and associated transport mechanisms. The primary sources of FIB appear to be internal to the beach rather than external sources such as rivers, storm sewer outfalls, and industrial discharges. Three potential FIB sources were identified: sand, swash-zone groundwater, and Cladophora mats. Modest correlations between FIB concentrations in these potential source reservoirs and FIB concentrations at the beach from the same day illustrate the importance of understanding transport mechanisms between FIB sources and the water column. One likely mechanism for transport and dispersion of FIB from sand and Cladophora sources appears to be agitation of Cladophora mats and erosion of beach sand due to storm activity, as inferred from storm indicators including turbidity, wave height, current speed, wind speed, sky visibility, 24-hour precipitation, and suspended particulate concentration. FIB concentrations in beach water had a statistically significant relation (p-value ‹0.05) with the magnitude of these storm indicators. In addition, transport of FIB in swash-zone groundwater into beach water appears to be driven by groundwater recharge associated with multiday precipitation and corresponding increased swash-zone groundwater discharge at the beach, as indicated by an increase in the specific conductance of beach water. Understanding the dynamics of FIB sources (sand, swash-zone groundwater, and Cladophora ) and transport mechanisms (dispersion and erosion from storm energy, and swash-zone groundwater discharge) is important for improving predictions of potential health risks from FIB in beach water.

Wisconsin↗
USGS2012

U.S. Geological Survey, National Wildlife Health Center, 2011 report of selected wildlife diseases

The National Wildlife Health Center (NWHC) was founded in 1975 to provide technical assistance in identifying, controlling, and preventing wildlife losses from diseases, conduct research to understand the impact of diseases on wildlife populations, and devise methods to more effectively manage these disease threats. The impetus behind the creation of the NWHC was, in part, the catastrophic loss of tens of thousands of waterfowl as a result of an outbreak of duck plague at the Lake Andes National Wildlife Refuge in South Dakota during January 1973. In 1996, the NWHC, along with other Department of Interior research functions, was transferred from the U.S. Fish and Wildlife Service to the U.S. Geological Survey (USGS), where we remain one of many entities that provide the independent science that forms the bases of the sound management of the Nation’s natural resources. Our mission is to provide national leadership to safeguard wildlife and ecosystem health through dynamic partnerships and exceptional science. The main campus of the NWHC is located in Madison, Wis., where we maintain biological safety level 3 (BSL–3) diagnostic and research facilities purposefully designed for work with wildlife species. The NWHC provides research and technical assistance on wildlife health issues to State, Federal, and international agencies. In addition, since 1992 we have maintained a field station in Hawaii, the Honolulu Field Station, which focuses on marine and terrestrial natural resources throughout the Pacific region. The NWHC conducts diagnostic investigations of unusual wildlife morbidity and mortality events nationwide to detect the presence of wildlife pathogens and determine the cause of death. This is also an important activity for detecting new, emerging and resurging diseases. The NWHC provides this crucial information on the presence of wildlife diseases to wildlife managers to support sound management decisions. The data and information generated also allows for further indepth analyses for determining the biological and ecological significance of disease events, detecting disease trends over time and space, as well as detecting any significant changes to how diseases manifest in the field. Moreover, this information allows us to gain insight into the significance of future wildlife disease events. The purpose of this report is to provide a sample of NWHC data that are available from our Laboratory Information Management System (LIMS). These data are presented in summary format with minimal statistical analysis and interpretation. The goal is to share these data with wildlife managers and other stakeholders, promote the use of NHWC data, and encourage the sharing of wildlife disease data to improve temporal and geographic surveillance coverage. Continued national surveillance for wildlife diseases is essential for providing early detection and warning of events that have the potential to result in harm to human health, economic losses, declines in wildlife populations, and subsequent ecological disturbances. Increased collaboration, coordination, and sharing of surveillance data will enhance this Nation’s ability to detect and respond to wildlife disease threats.

Scientific Investigations Report↗
USGS2017

Estimated fecal coliform bacteria concentrations using near real-time continuous water-quality and streamflow data from five stream sites in Chester County, Pennsylvania, 2007–16

Several streams used for recreational activities, such as fishing, swimming, and boating, in Chester County, Pennsylvania, are known to have periodic elevated concentrations of fecal coliform bacteria, a type of bacteria used to indicate the potential presence of fecally related pathogens that may pose health risks to humans exposed through water contact. The availability of near real-time continuous stream discharge, turbidity, and other water-quality data for some streams in the county presents an opportunity to use surrogates to estimate near real-time concentrations of fecal coliform (FC) bacteria and thus provide some information about associated potential health risks during recreational use of streams. The U.S. Geological Survey (USGS), in cooperation with the Chester County Health Department (CCHD) and the Chester County Water Resources Authority (CCWRA), has collected discrete stream samples for analysis of FC concentrations during March–October annually at or near five gaging stations where near real-time continuous data on stream discharge, turbidity, and water temperature have been collected since 2007 (or since 2012 at 2 of the 5 stations). In 2014, the USGS, in cooperation with the CCWRA and CCHD, began to develop regression equations to estimate FC concentrations using available near real-time continuous data. Regression equations included possible explanatory variables of stream discharge, turbidity, water temperature, and seasonal factors calculated using Julian Day with base-10 logarithmic (log) transformations of selected variables. The regression equations were developed using the data from 2007 to 2015 (101–106 discrete bacteria samples per site) for three gaging stations on Brandywine Creek (West Branch Brandywine Creek at Modena, East Branch Brandywine Creek below Downingtown, and Brandywine Creek at Chadds Ford) and from 2012 to 2015 (37–38 discrete bacteria samples per site) for one station each on French Creek near Phoenixville and White Clay Creek near Strickersville. Fecal coliform bacteria data collected by USGS in 2016 (about nine samples per site) were used to validate the equations. The best-fit regression equations included log turbidity and seasonality factors computed using Julian Day as explanatory variables to estimate log FC concentrations at all five stream sites. The adjusted coefficient of determination for the equations ranged from 0.61 to 0.76, with the strength of the regression equations likely affected in part by the limited amount and variability of FC bacteria data. During summer months, the estimated and measured FC concentrations commonly were greater than the Pennsylvania Department of Environmental Protection established standards of 200 and 400 colonies per 100 milliliters for water contact from May through September at the 5 stream sites, with concentrations typically higher at 2 sites (White Clay Creek and West Branch Brandywine Creek at Modena) than at the other 3 sites. The estimated concentrations of FC bacteria during the summer months commonly were higher than measured concentrations and therefore could be considered cautious estimates of potential human-health risk. Additional water-quality data are needed to maintain and (or) improve the ability of regression equations to estimate FC concentrations by use of surrogate data.

Pennsylvania↗
USGS2019

Spatial and temporal distribution of bacterial indicators and microbial-source tracking within Tumacácori National Historical Park and the upper Santa Cruz River, southern Arizona and northern Mexico, 2015–2016

Tumacácori National Historical Park (TUMA) in southern Arizona protects the culturally important Mission San José de Tumacácori, while also managing a part of the ecologically diverse riparian corridor of the Santa Cruz River. The quality of the water flowing through depends solely on upstream watershed activities, and among the water-quality issues concerning TUMA is the microbiological pathogens in the river introduced by human and animal sources that pose a significant human health risk to employees and visitors. The U.S. Geological Survey (USGS) conducted a 3-year study to understand the sources, timing, and distribution of the fecal-indicator bacteria Escherichia coli ( E. coli ) within TUMA and the upstream watershed. The information provided in this investigation is a result of a comprehensive approach to quantify the spatial and temporal variability of E. coli and suspended sediment in the Upper Santa Cruz River Watershed. Several types of flow were sampled from base flow to flood flow and at high frequency intervals (rise, peak, and recession) to determine daily variability, as well as seasonal variability. Hydrologic data collection and estimation techniques were used to establish a hydrologic relation with E. coli and suspended sediment. Furthermore, source tracking was used to describe the potential sources of E. coli . Models were developed that are expected to be useful for predicting E. coli concentrations to help TUMA managers understand instantaneous conditions to keep the public and staff informed about potentially harmful water-quality conditions. In addition, the concentration, flux, and source information will provide more accurate data for other surface-water modeling and can be useful in the development of total maximum daily load standards. This will help TUMA describe the water-quality conditions at the park and waters flowing through the park, as well as prioritize and help carry out future best-management actions to address these issues.

Tumacácori National Historical Park, Upper Santa C↗
USGS2020

Stormwater quality of infrastructure elements in Rapid City, South Dakota, 2016–18

As runoff flows over the land or impervious surfaces (paved streets, parking lots, and building roofs), it accumulates debris, chemicals, sediment, and other contaminants that can adversely affect water quality if the runoff discharge remains untreated. Pathogens, commonly measured using fecal indicator bacteria such as Escherichia coli , enterococci, or fecal coliform, are the most-frequent cause of water-quality impairment in rivers and streams in the United States. Rapid Creek originates in the western Black Hills area and flows east through Rapid City, South Dakota, to its mouth at the Cheyenne River. The water quality of Rapid Creek is important because the reach that flows through Rapid City is a valuable spawning area for a self-sustaining trout fishery, is actively used for recreation, and is a seasonal municipal water supply for the City of Rapid City. These uses (fishery, recreation, and water supply) are considered beneficial uses by the South Dakota Department of Environment and Natural Resources. Numerical criteria have been established for total suspended solids and Escherichia coli concentrations, among other water-quality constituents, for these beneficial uses. The objectives of this study were to improve the method by which fecal indicator bacteria and total suspended solids are quantified in the urban drainages within Rapid City and to provide information that helps identify origins of fecal indicator bacteria and total suspended solids. This information can be used in hydrologic models to estimate fecal indicator bacteria and total suspended solid loading from certain infrastructure elements in urban environments. Stormwater samples analyzed for Escherichia coli , total suspended solids, specific conductance, and pH were collected in three drainage basin flowpaths within Rapid City: Jackson, Wildwood, and the Eco Prayer Park. Data-collection activities for this study focused on upgradient urban flowpath elements during rainfall events. This approach builds upon previous stormwater assessments that characterized the water quality in urban basin outlets near the downstream end of the stormwater flowpaths. Within each flowpath group, 4–6 sites were selected to represent the various infrastructure elements of the runoff process. These elements included roof downspouts, parking lots, street curbs and gutters, open channels, underground storm sewers, and stormwater ponds or best-management practice facilities. In general, the concentrations of Escherichia coli and total suspended solids increased in the downstream direction for all flowpath sites. The wash-off process after the first flush is evident for total suspended solids and specific conductance; however, Escherichia coli concentrations did not necessarily follow the same pattern. Escherichia coli concentrations in the latter part of the runoff period were similar to or greater than the initial concentrations of the first set of samples. Stormwater-quality data were summarized by infrastructure type (roof downspout, parking lot, street curb, and channel/storm sewer) to provide information about approximate water-quality concentrations originating at the upper end of urban flowpaths. Escherichia coli and total suspended solid concentrations were lowest in samples collected from locations most isolated from human influence (roof downspouts); the median concentrations at these sites were 4 most probable number per 100 milliliters and 15 milligrams per liter, respectively. The delivery potential of fecal indicator bacteria and sediment from parking lots and street curbs was similar; median concentrations of Escherichia coli and total suspended solids were around 150–220 most probable number per 100 milliliters and 56–86 milligrams per liter, respectively. The downstream receiving channels and storm sewers where stormwater was aggregated typically contained the highest Escherichia coli concentrations (median was 1,800 most probable number per 100 milliliters), but the total suspended solid concentrations were similar to upstream elements in the flowpath (median was 69 milligrams per liter). The data collected from this study demonstrate that stormwater is contaminated with fecal indicator bacteria upon initial contact with impervious surfaces and highlight the importance of controlling the volume of stormwater discharges into receiving waterbodies via storage structures and pervious elements. Diluting stormwater with high concentrations of Escherichia coli with the receiving water’s (Rapid Creek) lower concentration of Escherichia coli is likely the primary mechanism for meeting the beneficial-use criterion threshold of 235 most probable number per 100 milliliters. Although total suspended solid concentrations in the upper parts of the basin (parking lots and street curbs) also begin at concentrations (56 to 86 milligrams per liter) above the beneficial-use criterion for Rapid Creek (53 milligrams per liter), current stormwater-control practices (storage ponds, swales, and wetlands) may be able to reduce suspended-sediment concentrations to meet this threshold.

South Dakota↗
USGS2021

Using microbial source tracking to identify fecal contamination sources in an embayment in Hempstead Harbor on Long Island, New York

The U.S. Geological Survey worked collaboratively with the New York State Department of Environmental Conservation to assess the potential sources of fecal contamination entering Hempstead Harbor, an embayment on the northern shore of Nassau County, Long Island, New York. Water samples are routinely collected by the New York State Department of Environmental Conservation in the harbor and analyzed for fecal coliform bacteria, an indicator of fecal contamination, to determine the need for closure of shellfish beds for harvest and consumption. Fecal coliform and other bacteria are an indicator of the potential presence of pathogenic (disease-causing) bacteria. However, indicator bacteria alone cannot determine the biological or geographical sources of contamination; therefore, microbial source tracking was implemented to determine various biological sources of contamination. In addition, information such as the location, weather and season, surrounding land use, and additional water-quality data (including nutrient and stable isotopes of nitrate analyses) for the location where a sample was collected help determine the geographical source and conveyance of land-based water to the embayment. Our analysis revealed an abundance of human and canine fecal contamination throughout the Hempstead Harbor landscape and that water from municipal separate storm sewer system conveyances was the most likely transport mechanism of this fecal contamination. Resuspension of bed sediment may contribute to fecal contamination in the harbor, but more targeted analyses are needed to support this finding. There was little evidence of groundwater-contributing fecal bacteria by direct discharge from the subsurface. A classification scheme was developed to convey the degree of fecal contamination to stakeholders and resource managers. Based on this classification scheme, the culvert at Glenwood Road and the outfall and the spillway at Skillman Street were identified as locations that contribute substantial fecal contamination to Hempstead Harbor.

New York↗
USGS2022

Using microbial source tracking to identify contamination sources in Port Jefferson Harbor, Setauket Harbor, and Conscience Bay on Long Island, New York

The U.S. Geological Survey worked in cooperation with the New York State Department of Environmental Conservation to assess the potential sources of fecal contamination entering Port Jefferson Harbor, Setauket Harbor, and Conscience Bay, an embayment complex on the northern shore of Suffolk County, Long Island, New York. Water samples are routinely collected by the New York State Department of Environmental Conservation in the harbor and analyzed for fecal coliform bacteria, an indicator of fecal contamination, to determine the need for closure of shellfish beds for harvest and consumption. Fecal coliform and other bacteria are an indicator of the potential presence of pathogenic (disease-causing) bacteria. However, indicator bacteria alone cannot determine the biological or geographical sources of contamination; therefore, microbial source tracking was implemented to determine various biological sources of contamination. In addition, information such as the location, weather and season, and surrounding land use where a sample was collected help determine the geographical source and conveyance of land-based water to the embayment. Our analysis revealed that the most substantial source of fecal contamination to the Port Jefferson Harbor complex was discharge from sites draining ponds and wetlands, particularly during the summer months. Fecal coliform bacteria at sites where ponds and wetlands drain are increased by stormwater runoff, which is another substantial source of fecal contamination. Human markers, likely originating from the outfall of the Port Jefferson sewage treatment plant, were found at least once in every sample collected within Port Jefferson Harbor; however, fecal coliform concentrations were low, indicating that the sewage treatment plant is not a likely source of fecal contamination to the embayment. Canine markers detected in Conscience Bay were associated with high fecal coliform, particularly in wet summer samples. Waterfowl markers were most often detected in source water for Port Jefferson Harbor, but in Conscience Bay, waterfowl was frequently detected within the bay itself. Resuspension of bed sediment may contribute to fecal contamination in the harbor, but more targeted analyses are needed to support this finding. There was little evidence of groundwater-contributing fecal bacteria by direct discharge from the subsurface. A classification scheme was developed to convey the degree of fecal contamination to stakeholders and resource managers. Based on this classification scheme, the Culvert North of State Route 25A, Culvert North of Shore Road, Old Mill Creek Culvert, and Mill Pond Culvert to Conscience Bay sites were identified as locations that contribute substantial fecal contamination to the Port Jefferson Harbor complex.

New York↗
USGS2022

Using microbial source tracking to identify fecal contamination sources in Patchogue and Bellport Bays on Long Island, New York

The U.S. Geological Survey worked in cooperation with the New York State Department of Environmental Conservation to assess the potential sources of fecal contamination entering Patchogue and Bellport Bays, two embayments on the south shore of Suffolk County, Long Island, New York. Water samples are routinely collected by the New York State Department of Environmental Conservation in the bays and analyzed for fecal coliform bacteria, an indicator of fecal contamination, to determine the need for closure of shellfish beds for harvest and consumption. Fecal coliform and other bacteria are an indicator of the potential presence of pathogenic (disease-causing) bacteria. However, indicator bacteria alone cannot determine the biological or geographical sources of contamination; therefore, microbial source tracking was implemented to determine various biological sources of contamination. In addition, information such as the location, weather and season, and surrounding land use where a sample was collected help determine the geographical source and conveyance of land-based water to the embayment. Analysis revealed that the most substantial source of fecal contamination to Patchogue and Bellport Bays was discharge from sites draining ponds and wetlands into the rivers and tributaries sampled, particularly during the summer months. Fecal coliform bacteria at sites where ponds and wetlands drain are increased by stormwater runoff, which is another substantial source of fecal contamination. Overall, canine- and waterfowl-associated bacterial contributions were prevalent in source samples in both bays. Human-associated markers were present in surface-water source samples and completely absent in receptor samples in Patchogue Bay. The Fireplace Neck receptor site in Bellport Bay had a human-associated marker present in the summer wet sample only. Human markers were detected at the sample site downstream from the Patchogue wastewater treatment plant but were associated with low fecal coliform concentrations, indicating that the wastewater treatment plant is not a likely source of fecal contamination to Patchogue Bay. The lack of human-associated marker detections within Patchogue and Bellport Bays in summer source samples coupled with low to no detections of fecal coliform, especially where small marinas are present in creeks and tributaries, suggest that boats do not substantially contribute fecal coliform bacteria to the bays. There was little evidence of groundwater-contributing fecal bacteria by direct discharge from the subsurface. Further, the sandy sediment alongside Patchogue and Bellport Bays is unlikely to contribute fecal coliform bacteria from the test host organisms when resuspended in the water column. A classification scheme was developed to convey the degree of fecal contamination to stakeholders and resource managers. Based on this classification scheme, the Corey Creek Near Middle Road, Patchogue River Near Division Street, and Swan River Mouth sampling sites were identified as locations that contribute substantial fecal contamination to Patchogue Bay. In Bellport Bay, the Culvert at Beaverdam Creek site was identified as the location contributing the most substantial fecal contamination.

New York↗
USGS2022

Using microbial source tracking to identify fecal contamination sources in Sag Harbor on Long Island, New York

The U.S. Geological Survey worked in cooperation with the New York State Department of Environmental Conservation to assess the potential sources of fecal contamination entering Sag Harbor, an embayment complex on the northern shore of the south fork of Suffolk County, Long Island, New York. Water samples are routinely collected by the New York State Department of Environmental Conservation in the harbor and analyzed for fecal coliform bacteria, an indicator of fecal contamination, to determine the need for closure of shellfish beds for harvest and consumption. Fecal coliform and other bacteria are an indicator of the potential presence of pathogenic (disease-causing) bacteria. However, indicator bacteria alone cannot determine the biological or geographical sources of contamination; therefore, microbial source tracking was implemented to determine various biological sources of contamination. In addition, information such as the location, weather and season, and surrounding land use where a sample was collected help determine the geographical source and conveyance of land-based water to the embayment. Analysis revealed that the most substantial source of fecal contamination to Sag Harbor was discharge from sites draining ponds and wetlands, particularly during the summer months. Fecal coliform bacteria at sites where ponds and wetlands drain are increased by stormwater runoff, which is another substantial source of fecal contamination. Human markers were detected in all four samples at the Sag Harbor Sewage Treatment Plant Outfall site but were associated with low fecal coliform concentrations, indicating that the sewage treatment plant is not a likely source of fecal contamination to the embayment. The Ligonee Brook Culvert, Paynes Creek near Marjorie Lane, and Otter Pond Culvert sites were identified as locations that contribute fecal contamination to Sag Harbor. These three locations had high fecal coliform bacteria concentrations in the summer, one of which was positive for canine microbial source tracking markers (Ligonee Brook Culvert), and another positive for waterfowl markers (Paynes Creek near Marjorie Lane). The absence of fecal coliform bacteria and human microbial source tracking markers in groundwater samples indicates that water from septic systems does not influence the harbor; however, elevated fecal coliform bacteria concentrations were not often detected. Further, the sandy sediment alongside Sag Harbor is unlikely to contribute fecal coliform bacteria when resuspended in the water column through tidal shifts or boat activity.

New York↗
USGS2022

Using microbial source tracking to identify fecal contamination sources in Lake Montauk on Long Island, New York

The U.S. Geological Survey worked in cooperation with the Concerned Citizens of Montauk and the New York State Department of Environmental Conservation to assess the potential sources of fecal contamination entering Lake Montauk, an artificial embayment on the tip of the southern fork of Suffolk County, Long Island, New York. Water samples are routinely collected by the New York State Department of Environmental Conservation in the harbor and analyzed for fecal coliform bacteria, an indicator of fecal contamination, to determine the need for closure of shellfish beds for harvest and consumption. Fecal coliform and other bacteria are an indicator of the potential presence of pathogenic (disease-causing) bacteria. However, indicator bacteria alone cannot determine the biological or geographical sources of contamination; therefore, microbial source tracking was implemented to determine various biological sources of contamination. In addition, information such as the location, weather and season, and surrounding land use where a sample was collected help determine the geographical source and conveyance of land-based water to the embayment. Overall, human and waterfowl markers were infrequently and sporadically present in source and receptor samples at low concentrations. By evaluating the microbial source tracking markers alongside fecal coliform data and land-use information, geographical sources of fecal contamination discharging from various source sites, such as culverts and ponds, were better differentiated. Analysis revealed that stormwater runoff and pond drainage were the most likely transport mechanisms for fecal contamination to Lake Montauk. When considering Lake Montauk as a whole, the highest frequency of fecal coliform detections in source site samples was found to be under wet summer conditions, as evidenced by the high fecal coliform concentrations at the South Beach, Stepping Stones Pond, and Stepping Stones Pond Culvert sites (300, 220, and more than 16,000 most probable number per 100 milliliters, respectively). No point sources of fecal coliform contamination to Lake Montauk were identified; however, receptor site samples adjacent to marinas (Lake Montauk Inlet and Star Island North sites) had a high frequency of human marker detections but were associated with fecal coliform concentrations at or below the reporting limit. The absence of fecal coliform and human microbial source tracking markers in groundwater samples indicated that water from septic systems did not influence the lake during this study. Further, the sandy sediment sample collected at the South Beach site was negative for all microbial source tracking markers and is unlikely to contribute fecal coliform from the tested host organisms when resuspended in the water column through tidal shifts or boat activity.

New York↗
USGS2022

Using microbial source tracking to identify fecal contamination sources in Great South Bay on Long Island, New York

The U.S. Geological Survey worked in cooperation with the New York State Department of Environmental Conservation to assess the potential sources of fecal contamination entering a part of Great South Bay (referred to as Great South Bay for the purposes of this report) near the hamlets of West Sayville, Sayville, and Bayport on the southern shore of Suffolk County on Long Island, New York. Water samples are routinely collected by the New York State Department of Environmental Conservation in the bay and analyzed for fecal coliform bacteria, an indicator of fecal contamination, to determine the need for closure of shellfish beds for harvest and consumption. Fecal coliform and other bacteria are an indicator of the potential presence of pathogenic (disease-causing) bacteria. However, indicator bacteria alone cannot determine the biological or geographical sources of contamination; therefore, microbial source tracking was implemented to determine various biological sources of contamination. In addition, information such as the location, weather and season, and surrounding land use where a sample was collected help determine the geographical source and conveyance of land-based water to the embayment. Analysis revealed that the most substantial source of fecal contamination to Great South Bay was discharge from sites draining ponds and wetlands into the tributaries sampled, Brown and Green Creeks, particularly during the summer months. Fecal coliform bacteria at sites where ponds and wetlands drain are increased by stormwater runoff, which is another substantial source of fecal contamination. Sites with high concentrations of fecal coliform bacteria in the summer exacerbated by stormwater include the Brown Creek Culvert at Middle Road, Mill Pond Culvert near South Street, and Green Creek Culvert near Montauk Highway sites. The canine Bacteroides (BacCan) marker was the most frequently detected microbial source tracking marker with 15 positive detections in surface water across the landscape, followed by the waterfowl Helicobacter (GFD) marker with 9 detections and the human Bacteroides (HF183) marker with 4 detections in surface water (excluding 2 detections in sediment). The ruminant Bacteroides (Rum2Bac) marker was not detected in any samples collected during this study. The detection frequency of BacCan was similar for all sampling conditions and seasons, suggesting canine influence is unrelated to weather events and is a year-round occurrence. BacCan was detected in 14 of 16 source samples and only 1 of 16 receptor samples, which suggests that canine fecal contamination is likely diluted in the bay. There was a similar amount of marker detections when comparing weather condition (wet or dry) and season (winter or summer), suggesting that fecal contamination was unrelated to weather events or time of year. Eight waterfowl marker detections were in samples collected during the winter, and only one during the summer, implicating seasonal avian fecal contamination throughout the embayment. The human marker was detected in only one surface-water receptor sample, during the wet winter sampling event at the Green Creek Mid-Bay site. Three of four human marker detections were in the samples collected during the wet winter sampling event, indicating that weather and season may influence the presence of human markers in Great South Bay, but human markers are not overly prevalent.

New York↗
USGS2022

Using microbial source tracking to identify fecal contamination sources in South Oyster Bay on Long Island, New York

The U.S. Geological Survey worked in cooperation with the New York State Department of Environmental Conservation to assess the potential sources of fecal contamination entering South Oyster Bay, a shallow embayment on the southern shore of Long Island, New York. Water samples are routinely collected by the New York State Department of Environmental Conservation in the bay and analyzed for fecal coliform bacteria, an indicator of fecal contamination, to determine the need for closure of shellfish beds for harvest and consumption. Fecal coliform and other bacteria are an indicator of the potential presence of pathogenic (disease-causing) bacteria. However, indicator bacteria alone cannot determine the biological or geographical sources of contamination; therefore, microbial source tracking was implemented to determine various biological sources of contamination. In addition, information such as the location, weather and season, and surrounding land use where a sample was collected help determine the geographical source and conveyance of land-based water to the embayment. Analysis revealed that the most substantial source of fecal contamination to South Oyster Bay was stormwater, particularly during the summer months. The highest frequency of fecal coliform detections in source sites were under wet summer conditions, and the highest fecal coliform concentrations were under wet summer conditions at the Cedar Creek near Bay Place and Unqua Lake Culvert sites (more than 16,000 most probable number per 100 milliliters each). The human-associated Bacteroides marker was the most frequently detected microbial source tracking marker in South Oyster Bay (50 percent positive detections). The human marker was detected at least twice in all surface water source and receptor sites, except for the Massapequa Lake East Culvert source site that did not have any positive human marker detections. Canine contamination was prolific at source sites but was associated with low fecal coliform concentrations in the winter months. All detections of the canine-associated Bacteroides marker were in samples collected during the winter season and were associated with fecal coliform concentrations below the reporting limit, indicating that birds are not a persistent source of fecal coliform to South Oyster Bay. The absence of fecal coliform and human markers in groundwater samples collected throughout the larger study area indicates that water from cesspools or septic tanks do not contribute fecal coliform to the bay. Further, microbial source tracking markers were not detected in the sandy sediment collected at Zachs Bay. Based a classification scheme developed to convey the degree of fecal contamination to stakeholders and resource managers, the Cedar Creek near Bay Place and Unqua Lake Culvert sites were identified as locations that contribute substantial fecal contamination to South Oyster Bay.

New York↗